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EBI PDBe PDBeView

PDBe Entry: 2r7z view

Cisplatin lesion containing RNA polymerase II elongation complex
Summary
Header TRANSCRIPTION/DNA-RNA HYBRIDsearch
Method X-RAY DIFFRACTION
Experiment Resolution: 3.8 Å, R-factor: 21.53%, Free R-factor: 24.01%, Spacegroup: C 2 2 21
Released 20/11/2007, deposition: 10/09/2007, last revision: 24/02/2009
Authors Damsma, G.E.search; Alt, A.search; Brueckner, F.search; Carell, T.search; Cramer, P.search
Primary citation Mechanism of transcriptional stalling at cisplatin-damaged DNA.
NAT.STRUCT.MOL.BIOL.search vol:14, pag:1127-1133 (2007) [PubMed ID 17994106 ]search
Keywords TRANSFERASE/DNA/RNAsearch, DNA DAMAGEsearch, ZINC-FINGERsearch, DNA-BINDINGsearch, PHOSPHORYLATIONsearch, CISPLATIN LESIONsearch, MISINCORPORATIONsearch, RNA POLYMERASE IIsearch, TRANSCRIPTION- COUPLED REPAIRsearch, TCRsearch, ARRESTsearch, STALLINGsearch, DNA LESIONsearch, METAL-BINDINGsearch, NUCLEAR PROTEINsearch, TRANSCRIPTION BUBBLEsearch, DAMAGE RECOGNITIONsearch, ELONGATION COMPLEXsearch, TRANSFERASEsearch, TRANSCRIPTIONsearch, TRANSFERASE/DNA/RNA COMPLEXsearch, TRANSCRIPTION/DNA-RNA HYBRID COMPLEXsearch
EC 2.7.7.6 ExPASy BRENDA search (A B)
Organism Saccharomyces cerevisiae(baker's yeast) 4932search(A B C D E F G H I J K L)
UniProt DNA-directed RNA polymerase II subunit RPB1 (EC 2.7.7.6) (RNA polymerase II subunit B1) (RNA polymerase II subunit 1) (DNA-directed RNA polymerase III largest subunit) (B220) P04050search (A)
DNA-directed RNA polymerase II subunit RPB2 (EC 2.7.7.6) (RNA polymerase II subunit 2) (DNA-directed RNA polymerase II 140 kDa polypeptide) (B150) P08518search (B)
DNA-directed RNA polymerase II subunit RPB3 (RNA polymerase II subunit B3) (RNA polymerase II subunit 3) (DNA-directed RNA polymerase II 45 kDa polypeptide) (B44.5) P16370search (C)
DNA-directed RNA polymerase II subunit RPB4 (RNA polymerase II subunit B4) (DNA-directed RNA polymerase II 32 kDa polypeptide) (B32) P20433search (D)
DNA-directed RNA polymerases I, II, and III subunit RPABC1 (RNA polymerases I, II, and III subunit ABC1) (DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide) (ABC27) P20434search (E)
DNA-directed RNA polymerases I, II, and III subunit RPABC2 (RNA polymerases I, II, and III subunit ABC2) (DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide) (ABC23) P20435search (F)
DNA-directed RNA polymerase II subunit RPB7 (RNA polymerase II subunit B7) (B16) P34087search (G)
DNA-directed RNA polymerases I, II, and III subunit RPABC3 (RNA polymerases I, II, and III subunit ABC3) (DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide) (ABC14.5) (ABC14.4) P20436search (H)
DNA-directed RNA polymerase II subunit RPB9 (RNA polymerase II subunit B9) (DNA-directed RNA polymerase II subunit 9) (DNA-directed RNA polymerase II 14.2 kDa polypeptide) (B12.6) P27999search (I)
DNA-directed RNA polymerases I, II, and III subunit RPABC5 (RNA polymerases I, II, and III subunit ABC5) (DNA-directed RNA polymerases I, II, and III 8.3 kDa polypeptide) (ABC10-beta) (ABC8) P22139search (J)
DNA-directed RNA polymerase II subunit RPB11 (RNA polymerase II subunit B11) (DNA-directed RNA polymerase II 13.6 kDa polypeptide) (B13.6) P38902search (K)
DNA-directed RNA polymerases I, II, and III subunit RPABC4 (RNA polymerases I, II, and III subunit ABC4) (ABC10-alpha) P40422search (L)
Polymers
Id Name Type UniProt Residues Observed
T 5'-D(*TP*AP*CP*TP*TP*GUP*CP*CP*CP*TP*CP*CP*TP*CP*AP*T)-3' DNA
17 100%
N 5'-D(*CP*AP*AP*GP*TP*AP*G)-3' DNA
7 100%
P 5'-R(*UP*UP*UP*GP*AP*GP*GP*AP*GP*G)-3' RNA
10 100%
A DNA-directed RNA polymerase II subunit RPB1 Protein P04050 (RPB1_YEAST)search
 1733 81%
B DNA-directed RNA polymerase II subunit RPB2 Protein P08518 (RPB2_YEAST)search
 1224 90%
C DNA-directed RNA polymerase II subunit RPB3 Protein P16370 (RPB3_YEAST)search
 318 83%
D DNA-directed RNA polymerase II subunit RPB4 Protein P20433 (RPB4_YEAST)search
 221 80%
E DNA-directed RNA polymerases I, II, and III subunit RPABC1 Protein P20434 (RPAB1_YEAST)search
 215 99%
F DNA-directed RNA polymerases I, II, and III subunit RPABC2 Protein P20435 (RPAB2_YEAST)search
 155 54%
G DNA-directed RNA polymerase II subunit RPB7 Protein P34087 (RPB7_YEAST)search
 171 100%
H DNA-directed RNA polymerases I, II, and III subunit RPABC3 Protein P20436 (RPAB3_YEAST)search
 146 91%
I DNA-directed RNA polymerase II subunit RPB9 Protein P27999 (RPB9_YEAST)search
 122 97%
J DNA-directed RNA polymerases I, II, and III subunit RPABC5 Protein P22139 (RPAB5_YEAST)search
 70 92%
K DNA-directed RNA polymerase II subunit RPB11 Protein P38902 (RPB11_YEAST)search
 120 95%
L DNA-directed RNA polymerases I, II, and III subunit RPABC4 Protein P40422 (RPAB4_YEAST)search
 70 65%
Heterogens
Id Name Ligands
T CIS-PLATINUM-(NH3)2 CPT search
A, B, C, I, J, L ZINC ION ZN search
A MAGNESIUM ION MG search
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